1 files changed, 0 insertions, 143 deletions
diff --git a/example/Persistent_cohomology/persistence_from_file.cpp b/example/Persistent_cohomology/persistence_from_file.cpp
deleted file mode 100644
index 53456919..00000000
--- a/example/Persistent_cohomology/persistence_from_file.cpp
+++ /dev/null
@@ -1,143 +0,0 @@
-/*    This file is part of the Gudhi Library. The Gudhi library 
- *    (Geometric Understanding in Higher Dimensions) is a generic C++ 
- *    library for computational topology.
- *
- *    Author(s):       Vincent Rouvreau
- *
- *    Copyright (C) 2014 Inria
- *
- *    This program is free software: you can redistribute it and/or modify
- *    it under the terms of the GNU General Public License as published by
- *    the Free Software Foundation, either version 3 of the License, or
- *    (at your option) any later version.
- *
- *    This program is distributed in the hope that it will be useful,
- *    but WITHOUT ANY WARRANTY; without even the implied warranty of
- *    MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
- *    GNU General Public License for more details.
- *
- *    You should have received a copy of the GNU General Public License
- *    along with this program.  If not, see <http://www.gnu.org/licenses/>.
- */
-
-#include <gudhi/reader_utils.h>
-#include <gudhi/graph_simplicial_complex.h>
-#include <gudhi/distance_functions.h>
-#include <gudhi/Simplex_tree.h>
-#include <gudhi/Persistent_cohomology.h>
-
-#include <boost/program_options.hpp>
-
-#include <string>
-
-using namespace Gudhi;
-using namespace Gudhi::persistent_cohomology;
-
-typedef int Vertex_handle;
-typedef double Filtration_value;
-
-void program_options(int argc, char * argv[]
-                     , std::string & simplex_tree_file
-                     , std::string & output_file
-                     , int & p
-                     , Filtration_value & min_persistence);
-
-int main(int argc, char * argv[]) {
-  std::string simplex_tree_file;
-  std::string output_file;
-  int p;
-  Filtration_value min_persistence;
-
-  program_options(argc, argv, simplex_tree_file, output_file, p, min_persistence);
-
-  std::cout << "Simplex_tree from file=" << simplex_tree_file.c_str() << " - output_file=" << output_file.c_str()
-      << std::endl;
-  std::cout << "     - p=" << p << " - min_persistence=" << min_persistence << std::endl;
-
-  // Read the list of simplices from a file.
-  Simplex_tree<> simplex_tree;
-
-  std::ifstream simplex_tree_stream(simplex_tree_file);
-  simplex_tree_stream >> simplex_tree;
-
-  std::cout << "The complex contains " << simplex_tree.num_simplices() << " simplices" << std::endl;
-  std::cout << "   - dimension " << simplex_tree.dimension() << std::endl;
-
-  /*
-  std::cout << std::endl << std::endl << "Iterator on Simplices in the filtration, with [filtration value]:" << std::endl;
-  for( auto f_simplex : simplex_tree.filtration_simplex_range() )
-  { std::cout << "   " << "[" << simplex_tree.filtration(f_simplex) << "] ";
-  for( auto vertex : simplex_tree.simplex_vertex_range(f_simplex) )
-  { std::cout << vertex << " "; }
-  std::cout << std::endl;
-  }*/
-
-  // Sort the simplices in the order of the filtration
-  simplex_tree.initialize_filtration();
-
-  // Compute the persistence diagram of the complex
-  Persistent_cohomology< Simplex_tree<>, Field_Zp > pcoh(simplex_tree);
-  // initializes the coefficient field for homology
-  pcoh.init_coefficients(p);
-
-  pcoh.compute_persistent_cohomology(min_persistence);
-
-  // Output the diagram in output_file
-  if (output_file.empty()) {
-    pcoh.output_diagram();
-  } else {
-    std::ofstream out(output_file);
-    pcoh.output_diagram(out);
-    out.close();
-  }
-
-  return 0;
-}
-
-void program_options(int argc, char * argv[]
-                     , std::string & simplex_tree_file
-                     , std::string & output_file
-                     , int & p
-                     , Filtration_value & min_persistence) {
-  namespace po = boost::program_options;
-  po::options_description hidden("Hidden options");
-  hidden.add_options()
-      ("input-file", po::value<std::string>(&simplex_tree_file),
-       "Name of file containing a simplex set. Format is one simplex per line (cf. reader_utils.h - read_simplex): Dim1 X11 X12 ... X1d Fil1  ");
-
-  po::options_description visible("Allowed options", 100);
-  visible.add_options()
-      ("help,h", "produce help message")
-      ("output-file,o", po::value<std::string>(&output_file)->default_value(std::string()),
-       "Name of file in which the persistence diagram is written. Default print in std::cout")
-      ("field-charac,p", po::value<int>(&p)->default_value(11),
-       "Characteristic p of the coefficient field Z/pZ for computing homology.")
-      ("min-persistence,m", po::value<Filtration_value>(&min_persistence),
-       "Minimal lifetime of homology feature to be recorded. Default is 0");
-
-  po::positional_options_description pos;
-  pos.add("input-file", 1);
-
-  po::options_description all;
-  all.add(visible).add(hidden);
-
-  po::variables_map vm;
-  po::store(po::command_line_parser(argc, argv).
-            options(all).positional(pos).run(), vm);
-  po::notify(vm);
-
-  if (vm.count("help") || !vm.count("input-file")) {
-    std::cout << std::endl;
-    std::cout << "Compute the persistent homology with coefficient field Z/pZ \n";
-    std::cout << "of a Rips complex defined on a set of input points.\n \n";
-    std::cout << "The output diagram contains one bar per line, written with the convention: \n";
-    std::cout << "   p   dim b d \n";
-    std::cout << "where dim is the dimension of the homological feature,\n";
-    std::cout << "b and d are respectively the birth and death of the feature and \n";
-    std::cout << "p is the characteristic of the field Z/pZ used for homology coefficients." << std::endl << std::endl;
-
-    std::cout << "Usage: " << argv[0] << " [options] input-file" << std::endl << std::endl;
-    std::cout << visible << std::endl;
-    exit(-1);
-  }
-}